Contacts of the helix formed by residues 741 - 756 (chain A) in PDB entry 4CEK
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 741 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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697A HIS* 2.9 37.6 + - - -
739A HIS 4.0 1.2 + - - -
740A LEU* 1.3 75.8 - - - +
742A ALA* 1.3 66.6 + - - +
743A ARG* 3.6 13.5 + - - +
744A TYR* 3.0 30.7 + - - +
745A VAL* 3.3 5.8 + - - -
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Residues in contact with ALA 742 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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740A LEU 3.8 1.0 + - - -
741A ASP* 1.3 72.7 - - - +
743A ARG* 1.3 62.5 + - - +
745A VAL* 3.2 11.3 + - - +
746A THR* 3.1 29.6 + - - +
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Residues in contact with ARG 743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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697A HIS* 5.4 0.2 - - - -
701A GLU* 3.4 30.1 + - - -
741A ASP* 3.0 14.5 + - - +
742A ALA* 1.3 78.6 - - - +
744A TYR* 1.3 94.9 + - + +
746A THR* 3.7 4.9 + - - +
747A MET* 3.2 38.1 + - + +
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Residues in contact with TYR 744 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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697A HIS* 3.2 62.9 - + - +
698A HIS* 5.2 1.6 - - - -
700A ILE* 3.7 38.8 - - + -
701A GLU* 3.2 26.2 + - + -
740A LEU* 4.2 9.4 - - + -
741A ASP* 3.0 28.5 + - - +
743A ARG* 1.3 104.8 + - - +
745A VAL* 1.3 67.0 + - - +
746A THR 3.2 0.9 - - - -
747A MET* 3.7 11.4 - - + +
748A VAL* 3.0 29.3 + - - +
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Residues in contact with VAL 745 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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735A LYS* 3.7 34.2 - - + +
740A LEU* 3.4 35.0 - - + +
741A ASP 3.3 6.4 + - - +
742A ALA* 3.2 10.7 + - - +
744A TYR* 1.3 77.6 - - - +
746A THR* 1.3 57.4 + - - +
748A VAL* 3.5 2.8 + - - +
749A GLU* 3.1 51.0 + - - +
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Residues in contact with THR 746 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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742A ALA* 3.1 17.6 + - - +
743A ARG* 3.9 5.4 - - - +
745A VAL* 1.3 76.0 - - - +
747A MET* 1.3 58.6 + - - +
749A GLU* 3.2 15.9 + - - +
750A ASN* 2.9 48.6 + - - +
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Residues in contact with MET 747 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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700A ILE* 4.4 1.3 - - + -
701A GLU* 3.7 42.0 - - + +
704A CYS* 3.7 25.7 - - + +
743A ARG* 3.2 53.0 + - + +
744A TYR* 3.7 19.3 - - + +
746A THR* 1.3 75.1 - - - +
748A VAL* 1.3 64.2 + - - +
750A ASN* 3.2 7.8 + - - +
751A ALA* 3.1 18.7 + - - +
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Residues in contact with VAL 748 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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695A PHE* 4.0 18.4 - - + -
700A ILE* 3.7 22.9 - - + -
704A CYS* 4.0 7.0 - - - -
731A MET* 3.7 45.1 - - + +
732A MET* 4.3 11.4 - - + +
735A LYS* 4.5 7.0 - - + -
740A LEU* 4.3 7.4 - - + -
744A TYR 3.0 19.1 + - - +
745A VAL 3.8 3.8 - - - +
747A MET* 1.3 74.2 - - - +
749A GLU* 1.3 56.0 + - - +
751A ALA* 3.3 3.3 + - - +
752A TYR* 2.9 29.6 + - + +
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Residues in contact with GLU 749 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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732A MET* 4.1 15.3 - - + -
735A LYS* 2.7 38.6 + - + +
745A VAL* 3.1 26.7 + - - +
746A THR* 3.4 21.1 + - - +
748A VAL* 1.3 74.2 - - - +
750A ASN* 1.3 67.1 + - - +
752A TYR* 3.2 2.4 + - - +
753A TYR* 3.0 42.6 + - + +
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Residues in contact with ASN 750 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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746A THR* 2.9 40.0 + - - +
747A MET* 3.7 6.3 - - - +
749A GLU* 1.3 75.9 - - - +
751A ALA* 1.3 56.1 + - - +
753A TYR* 3.9 6.5 - - - +
754A TYR* 2.9 31.5 + - - +
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Residues in contact with ALA 751 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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704A CYS* 3.9 35.7 - - + +
707A LEU* 4.4 18.2 - - + -
708A GLU* 5.4 6.7 - - + +
731A MET* 5.0 1.3 - - + -
747A MET 3.1 13.5 + - - +
748A VAL* 3.8 6.3 - - - +
750A ASN* 1.3 75.1 - - - +
752A TYR* 1.3 62.7 + - - +
754A TYR* 3.4 7.1 + - - +
755A CYS* 3.2 28.9 + - - -
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Residues in contact with TYR 752 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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728A LEU* 3.6 38.5 - - + +
729A GLU* 2.4 34.6 + - - -
731A MET* 5.8 3.0 - - + +
732A MET* 3.2 46.7 - - + -
748A VAL* 2.9 18.1 + - + +
749A GLU 3.2 4.2 + - - +
751A ALA* 1.3 76.9 - - - +
753A TYR* 1.3 77.7 + + - +
755A CYS* 3.1 3.8 + - - +
756A ASN* 2.8 58.8 + - - +
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Residues in contact with TYR 753 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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712A ARG* 5.1 0.3 + - - -
732A MET* 3.8 20.4 - - + +
749A GLU* 3.0 44.6 + - + +
750A ASN* 4.2 7.0 - - - +
752A TYR* 1.3 92.0 - + - +
754A TYR* 1.3 64.7 + - - +
756A ASN 4.0 9.4 - - - -
757A PRO* 3.3 32.3 - - + +
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Residues in contact with TYR 754 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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460A GLU* 4.3 4.7 + - - -
707A LEU 4.2 13.0 - - - -
708A GLU* 3.7 42.0 + - + -
712A ARG* 2.7 82.3 + - + +
750A ASN 2.9 18.9 + - - +
751A ALA* 3.5 8.3 - - - +
752A TYR 3.2 0.2 - - - -
753A TYR* 1.3 78.5 - - - +
755A CYS* 1.4 58.5 + - - +
757A PRO* 4.0 2.3 - - - +
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Residues in contact with CYS 755 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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707A LEU* 4.0 26.2 - - - -
711A GLY* 3.8 35.7 - - - +
712A ARG* 4.0 14.0 - - - +
715A PHE* 3.6 20.4 - - + +
716A ARG* 5.2 2.9 + - - -
724A THR* 5.9 0.2 - - - -
728A LEU* 3.9 22.9 - - + -
751A ALA 3.2 14.0 + - - -
752A TYR 3.1 6.0 + - - +
754A TYR* 1.4 75.9 - - - +
756A ASN* 1.3 59.2 + - - +
757A PRO* 3.3 9.9 - - - +
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Residues in contact with ASN 756 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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715A PHE* 3.3 37.1 - - + -
725A SER* 5.3 3.0 + - - +
728A LEU* 4.2 9.2 - - + +
729A GLU* 4.1 6.3 + - - -
752A TYR* 2.8 51.4 + - + +
753A TYR* 3.8 9.4 - - - -
755A CYS* 1.3 74.0 - - - +
757A PRO* 1.4 66.1 - - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il